=> "/opt/local/bin/bmake" ["-C", "/data/jenkins/workspace/pkgsrc-trunk-x86_64/biology/minimap2", "configure", "BATCH=1", "DEPENDS_TARGET=/nonexistent"]
=> Checksum BLAKE2s OK for minimap2-2.28.tar.gz
=> Checksum SHA512 OK for minimap2-2.28.tar.gz
===> Installing dependencies for minimap2-2.28nb1
=> Tool dependency gmake>=3.81: found gmake-4.4.1
=> Tool dependency cwrappers>=20150314: found cwrappers-20220403
=> Tool dependency checkperms>=1.1: found checkperms-1.12
=> Build dependency gcc13>=13.4.0: found gcc13-13.4.0
=> Build dependency simde>=0.7.2: found simde-0.8.2
=> Full dependency gcc13-libs>=13.4.0: found gcc13-libs-13.4.0
=> Full dependency zlib>=1.2.3: found zlib-1.3.1
===> Overriding tools for minimap2-2.28nb1
===> Extracting for minimap2-2.28nb1
===> Patching for minimap2-2.28nb1
=> Applying pkgsrc patches for minimap2-2.28nb1
=> Verifying /data/jenkins/workspace/pkgsrc-trunk-x86_64/biology/minimap2/patches/patch-Makefile.simde
=> Applying pkgsrc patch /data/jenkins/workspace/pkgsrc-trunk-x86_64/biology/minimap2/patches/patch-Makefile.simde
Hmm...  Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-Makefile.simde,v 1.3 2024/05/18 00:27:16 nia Exp $
|
|# Respect standard env vars
|
|--- Makefile.simde.orig	2024-03-27 14:57:17.000000000 +0000
|+++ Makefile.simde
--------------------------
Patching file Makefile.simde using Plan A...
Hunk #1 succeeded at 1.
Hunk #2 succeeded at 39.
Hunk #3 succeeded at 50.
Hunk #4 succeeded at 75.
done
=> Verifying /data/jenkins/workspace/pkgsrc-trunk-x86_64/biology/minimap2/patches/patch-example.c
=> Applying pkgsrc patch /data/jenkins/workspace/pkgsrc-trunk-x86_64/biology/minimap2/patches/patch-example.c
Hmm...  Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-example.c,v 1.2 2024/04/10 12:36:12 bacon Exp $
|
|# Fix data type mismatch
|
|--- example.c.orig	2021-11-30 15:26:24 UTC
|+++ example.c
--------------------------
Patching file example.c using Plan A...
Hunk #1 succeeded at 44.
done
===> Creating toolchain wrappers for minimap2-2.28nb1
/usr/bin/sed  -e '/^#/d'  -e 's,@LINK_ARCH_DEFAULT@,link_arch64,g'  -e 's,@LINK_LIBGCC_DEFAULT@,link_libgcc_arch64,g'  -e 's,@LIBGCC_PREFIX@,/opt/local/gcc13/x86_64-sun-solaris2.11,g'  < ../../extra/gcc13-libs/files/specs.pkgsrc  > /tmp/work/biology/minimap2/work/.cwrapper/specs.pkgsrc
===> Configuring for minimap2-2.28nb1